Additional file 2: of Genomic differentiation among wild cyanophages despite widespread horizontal gene transfer

Lineage information. Figure S2. TEM images of phage isolates from cyanophage (A) lineage I, (B) lineage II, (C) lineage III, (D) lineage IV, (E) lineage V, (F) lineage VI, and (G-J) singleton and duplicon populations confirms myovirus morphology. Table S2. List of 51 core protein clusters shared across all six phylogenetic lineages. Fig. S3. Unrooted phylogenomic maximum likelihood tree of 27 concatenated protein sequences shared across published marine and non-marine T4-like phage genomes and the 142 cyanophage isolate genomes sequenced here. For simplicity, cyanophage isolate names in this tree were shortened from Syn7803* to just *. These analyses show that the 10 cyanophage populations observed here share similar evolutionary histories with other T4-like phages. Table S3. Average ANI of the 51 core genes within and between lineages. Table S4. AGDB groupings correspond with the phylogenetic lineages. Table S5. Average phylogenetic distances within and between lineages. Table S6. Corrected Rand Indices and Malia’s VI values to compare the row and column hierarchical clustering between the original ANI and Shared Gene matrix and a randomized ANI and Shared Gene matrix, respectively. The hierarchical clusters were split into different number of clusters (5,10, 20 and 50) for the analyses. The analyses revealed low correspondence between clustering, indicating that the clustering we observe in the original matrices are not random. (DOC 4227 kb)